[Bioperl-l] AlignIO problems
Stephen Henderson
s.henderson@ucl.ac.uk
Tue, 19 Jun 2001 17:48:04 +0100
I am having problems using the AlignIO functions for file-type conversion
running this program in my Bioperl-0.7 folder
#!/usr/local/bin/perl
use Bio::AlignIO;
$in = BIO::AlignIO -> new( -file => "clustalj2.msf",
-format => 'msf');
$out = BIO::AlignIO ->new( -file => ">clustalj2.fas",
-format => 'fasta');
while (my $aln = $in->next_aln())
{
$out-> write_aln($aln);
}
Results in the following error message:
Can't locate object method "new" via Package "BIO::AlignIO" (perhaps you
forgot to load "BIO::AlignIO"?) at align.pl line 5
Does anybody know what this means?
-(other packages I have tried seem to work OK
eg. use BIO::Seq;, use BIO::SeqIO; use BIO::DB::GenBank--are all OK but not
AlignIO in this case)